MDGRAPE-3 is an ultra-high performance petascale supercomputer system developed by the RIKEN research institute in Japan. It is a special purpose system built for molecular dynamics simulations, especially protein structure prediction.
In June 2006 RIKEN announced its completion, achieving the petaFLOPS level of floating point arithmetic performance. This was more than three times faster than the 2006 version of the IBM Blue Gene/L system, which then led the TOP500 list of supercomputers at 0.28 petaFLOPS. Because it's not a general-purpose machine capable of running the LINPACK benchmark, MDGRAPE-3 does not qualify for the TOP500 list.
- Carey, Bjorn (2006), Overachievers We Love - Faster, Popular Science 269 (6): 24
- RIKEN press release, Completion of a one-petaflops computer system for simulation of molecular dynamics
- Makoto Taiji, "MDGRAPE-3 chip: A 165-Gflops application-specific LSI for Molecular Dynamics Simulations", 16th IEEE Hot Chips Symposium, August 2004.